Rbowtie2

DOI: 10.18129/B9.bioc.Rbowtie2    

This is the development version of Rbowtie2; for the stable release version, see Rbowtie2.

An R Wrapper for Bowtie2 and AdapterRemoval

Bioconductor version: Development (3.11)

This package provides an R wrapper of the popular bowtie2 sequencing reads aligner and AdapterRemoval, a convenient tool for rapid adapter trimming, identification, and read merging.

Author: Zheng Wei, Wei Zhang

Maintainer: Zheng Wei <wzweizheng at qq.com>

Citation (from within R, enter citation("Rbowtie2")):

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("Rbowtie2")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Rbowtie2")

 

HTML R Script An Introduction to Rbowtie2
PDF   Reference Manual
Text   NEWS

Details

biocViews Alignment, Preprocessing, Sequencing, Software
Version 1.9.0
In Bioconductor since BioC 3.6 (R-3.4) (2 years)
License GPL (>= 3)
Depends R (>= 3.5)
Imports
LinkingTo
Suggests knitr
SystemRequirements C++11
Enhances
URL
Depends On Me
Imports Me esATAC
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package Rbowtie2_1.9.0.tar.gz
Windows Binary Rbowtie2_1.9.0.zip (64-bit only)
Mac OS X 10.11 (El Capitan) Rbowtie2_1.9.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Rbowtie2
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Rbowtie2
Package Short Url https://bioconductor.org/packages/Rbowtie2/
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